Page Contents
Workflows available
Assembly_Fetch
Augur
BaseSpace_Fetch
Cauris_CladeTyper
Concatenate_Column_Content
Core_Gene_SNP
CZGenEpi_Prep
Find_Shared_Variants
Freyja Wastewater Analysis Series
GAMBIT_Query
Kraken2
kSNP3
Lyve_SET
MashTree_FASTA
Mercury_Prep_N_Batch
Pangolin Update
RASUSA
Rename_FASTQ
Snippy_Streamline
Snippy_Tree
Snippy_Variants
SRA_Fetch
TBProfiler_tNGS
Terra_2_GISAID
Terra_2_NCBI
TheiaCoV Workflow Series
TheiaEuk Workflow Series
TheiaMeta Workflow Series
TheiaProk Workflow Series
TheiaValidate
Transfer_Column_Content
Usher_PHB
VADR_Update
Zip_Column_Content
Guide to Phylogenetics
Overview
This workflow is still in experimental research stages. Documentation is minimal as changes may occur in the code; it will be fleshed out when a stable state has been achieved.
Inputs
General description of inputs- data type, sequencing machine, any key information, e.g. read length considerations
Terra Inputs
Outputs
Terra Outputs
✉️ [email protected] | X (formerly Twitter) | LinkedIn | 🌐 Website